Special

MmuINT0011176 @ mm9

Intron Retention

Gene
ENSMUSG00000014852 | Adamts13
Description
a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 13 [Source:MGI Symbol;Acc:MGI:2685556]
Coordinates
chr2:26844758-26845965:+
Coord C1 exon
chr2:26844758-26844939
Coord A exon
chr2:26844940-26845829
Coord C2 exon
chr2:26845830-26845965
Length
890 bp
Sequences
Splice sites
5' ss Seq
CAGGTCATC
5' ss Score
2.07
3' ss Seq
TCTCATCTGTCTGGATATAGGTG
3' ss Score
9.15
Exon sequences
Seq C1 exon
CGGTGAGGATCCAGGGCCACTACATTGTGGCAGGGAAGACTAGCATCTCACCCAACACCACCTACCCTTCCCTTCTGGAGGACTACCGTGTGGAATACAGAGTGACTCTCACTGAGGACCAGCTGCCCCACTTAGAGGAGATTCACATCCGGGGACCCGTCCGGGATGACATTGAGATTCAG
Seq A exon
GTCATCAATCAGCCAGGCTGGGAGGCGGGGCATGGGGTGGAGTCAGCAGGCCTCTCCTAGTGACTCTGGCTATCTGCATATTTGTCTGTAATTAATTCACTCACTTATTAATCCTTGAGGCAGTCATTTGGGGACCCTCTACAAATGAGGCTCTGTATAAGGTGAAGTGCAACAAGTGCCACTCACGGGATTAATGTATAGCAAGTCCCTATAAATATGTGCCTGTGTCTAGGGCATGCAGAAGGCCTCGGAGATCTGAGCGTATAATAGAGAGTAGAATTAATGCTGGAGTCAGGAACCACCACCACCCCCATCAGAAAAACATGGGGGAGCTGAAGGACTGGCCATGGACAGTCCTCTGAAATGGGGAATAGGCCAAGCAAGGAGTCCCTGTGCCAGCTGGCATGTGGGGACCCTTCAGGGGATGGAGGGCAGTTCTTGCTTCTTTGAGAGTAGAGGCACATGAGGCCTTGAAAGATTTCCGGTAGGGATGTCCTCAAAGATGTGTCTCGTCTGTGTGTCCCTCTGTGTGTTCTGCTAAAGAAGGCATATGTAAGTGGATCAAAGCTGAAATGGCCTGAGCCTGAGCCTTATAGCCTGGCCTGGAGCCCTTTTGCTGGACCATTCCCTGCCCTGATGCTCACTACTCCTGACCTCCTTGGCTGTAGTCTGTCCCCAACGTCATCAATATTCCCATAATACCCTACTCCAAACCTCCCACTCCCTTGGTACATACCTGATCCTCCCACATTTCTCAGAGTTCCTTGACACTCAAGTCCTGTCTGCCTCCTGGAGTCTGGGAACATGAATGCTTTCGGGACAGATGGTTGTGACAGAGACCCCAGGGTGTGCCCTGTTCAGGACCTGAGCTCTCATCTGTCTGGATATAG
Seq C2 exon
GTGTACAGACGATATGGAGGAGAATATGGGGATCTTACACACCCAGACATCACCTTTTCCTACTTTCAACTGAAGCAGCAGGCAGCCTGGGTATGGACCGCTAAGCGTGGACCCTGCTCAGTGAGCTGTGGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014852-Adamts13:NM_001001322:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF059869=ADAM_spacer1=FE(48.4=100)

							
A:
NA

							
C2:
PF059869=ADAM_spacer1=PD(17.7=47.8)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000099955





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000014996
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr9:133440526-133442398 
ALTERNATIVE
HsaINT1002763
(ADAMTS13)
Human
(hg19)
chr9:136305647-136307519 
HsaINT0003951
(ADAMTS13)
Rat
(rn6)
chr3:5544093-5544943 
Cow
(bosTau6)
chr11:104392851-104394796 
LOW PSI
BtaINT0013986
(ADAMTS13)
Chicken
(galGal4)
chr17:6916279-6916716 
LOW PSI
GgaINT1005466
(ADAMTS13)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAGGATCCAGGGCCACTACAT

				
R: 
CTCACTGAGCAGGGTCCACG

				
Band lengths: 
303-1193

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"